Locus 4572

Sequence ID 3R_DroMel_CAF1
Location 12,071,702 – 12,071,860
Length 158
Max. P 0.813156
window7488 window7489

overview

Window 8

Location 12,071,702 – 12,071,820
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 99.33
Mean single sequence MFE -21.60
Consensus MFE -20.88
Energy contribution -20.88
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.43
Structure conservation index 0.97
SVM decision value 0.66
SVM RNA-class probability 0.813156
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12071702 118 - 27905053
ACUCACACACUCAUGCAAAUAUAGCAGCG-GCUAUGUGGCUAUAUGUGCAAC-CAAAGCGUAACCAAAACCAAACCAACCAAGUCGCGAUUUUCAUUCAUAAAAUCGAAGAGCCAAAGAA
.........(((.((((.(((((((.(((-....))).))))))).))))..-.................................(((((((.......)))))))..)))........ ( -21.60)
>DroSec_CAF1 8235 120 - 1
ACUCACACACUCAUGCAAAUAUAGCAGCGGGCUAUGUGGCUAUAUGUGCAACCCAAAGCGUAACCAAAACCAAACCAACCAAGUCGCGAUUUUCAUUCAUAAAAUCGAAGAGCCAAAGAA
.........(((.((((.(((((((.(((.....))).))))))).))))....................................(((((((.......)))))))..)))........ ( -21.60)
>DroSim_CAF1 8670 118 - 1
ACUCACACACUCAUGCAAAUAUAGCAGCG-GCUAUGUGGCUAUAUGUGCAAC-CAAAGCGUAACCAAAACCAAACCAACCAAGUCGCGAUUUUCAUUCAUAAAAUCGAAGAGCCAAAGAA
.........(((.((((.(((((((.(((-....))).))))))).))))..-.................................(((((((.......)))))))..)))........ ( -21.60)
>DroEre_CAF1 10227 118 - 1
ACUCACACACUCAUGCAAAUAUAGCAGCG-GCUAUGUGGCUAUAUGUGCAAC-CAAAGCGUAACCAAAACCAAACCAACCAAGUCGCGAUUUUCAUUCAUAAAAUCGAAGAGCCAAAGAA
.........(((.((((.(((((((.(((-....))).))))))).))))..-.................................(((((((.......)))))))..)))........ ( -21.60)
>DroYak_CAF1 10432 118 - 1
ACUCACACACUCAUGCAAAUAUAGCAGCG-GCUAUGUGGCUAUAUGUGCAAC-CAAAGCGUAACCAAAACCAAACCAACCAAGUCGCGAUUUUCAUUCAUAAAAUCGAAGAGCCAAAGAA
.........(((.((((.(((((((.(((-....))).))))))).))))..-.................................(((((((.......)))))))..)))........ ( -21.60)
>consensus
ACUCACACACUCAUGCAAAUAUAGCAGCG_GCUAUGUGGCUAUAUGUGCAAC_CAAAGCGUAACCAAAACCAAACCAACCAAGUCGCGAUUUUCAUUCAUAAAAUCGAAGAGCCAAAGAA
.........(((.((((.(((((((.(((.....))).))))))).))))....................................(((((((.......)))))))..)))........ (-20.88 = -20.88 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 12,071,742 – 12,071,860
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.82
Mean single sequence MFE -23.58
Consensus MFE -22.46
Energy contribution -22.86
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.95
SVM decision value 0.50
SVM RNA-class probability 0.758499
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12071742 118 - 27905053
CCCAGACACCAGACACAUGUGUGUGCGUAUCCUUCGCUCCACUCACACACUCAUGCAAAUAUAGCAGCG-GCUAUGUGGCUAUAUGUGCAAC-CAAAGCGUAACCAAAACCAAACCAACC
............((.(..(((((((.((............)).)))))))...((((.(((((((.(((-....))).))))))).))))..-....).))................... ( -25.30)
>DroSec_CAF1 8275 120 - 1
CCCAGACACCAGACACAUGUGUAUGCGUAUCCUUCGCUCCACUCACACACUCAUGCAAAUAUAGCAGCGGGCUAUGUGGCUAUAUGUGCAACCCAAAGCGUAACCAAAACCAAACCAACC
............((.(.((((...(((.......)))......))))......((((.(((((((.(((.....))).))))))).)))).......).))................... ( -21.00)
>DroSim_CAF1 8710 118 - 1
CCCAGACACCAGACACAUGUGUAUGCGUAUCCUUCGCUCCACUCACACACUCAUGCAAAUAUAGCAGCG-GCUAUGUGGCUAUAUGUGCAAC-CAAAGCGUAACCAAAACCAAACCAACC
............((.(.((((...(((.......)))......))))......((((.(((((((.(((-....))).))))))).))))..-....).))................... ( -21.00)
>DroEre_CAF1 10267 118 - 1
CCCAGACACCAGACACAUGUGUGUGCGUAUCCUUCGCUCCACUCACACACUCAUGCAAAUAUAGCAGCG-GCUAUGUGGCUAUAUGUGCAAC-CAAAGCGUAACCAAAACCAAACCAACC
............((.(..(((((((.((............)).)))))))...((((.(((((((.(((-....))).))))))).))))..-....).))................... ( -25.30)
>DroYak_CAF1 10472 118 - 1
CCCAGACACCAGACACAUGUGUGUGCGUAUCCUUCGCUCCACUCACACACUCAUGCAAAUAUAGCAGCG-GCUAUGUGGCUAUAUGUGCAAC-CAAAGCGUAACCAAAACCAAACCAACC
............((.(..(((((((.((............)).)))))))...((((.(((((((.(((-....))).))))))).))))..-....).))................... ( -25.30)
>consensus
CCCAGACACCAGACACAUGUGUGUGCGUAUCCUUCGCUCCACUCACACACUCAUGCAAAUAUAGCAGCG_GCUAUGUGGCUAUAUGUGCAAC_CAAAGCGUAACCAAAACCAAACCAACC
............((.(..(((((((.((............)).)))))))...((((.(((((((.(((.....))).))))))).)))).......).))................... (-22.46 = -22.86 +   0.40)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:03 2006